Browse Rfam families with structures

Rfam includes 131 families with three-dimensional structures. The table may be sorted by clicking on the column titles, or restored to the original order here. Please note that sorting large tables can be slow. Go back to the browse index.

0 - 9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
Original order ID Accession Type Seed Full Number of structures Description
0 2dG-I RF01510 Cis-reg; riboswitch; 4 24 16 2dG-I riboswitch aptamer (M. florum)
1 5S_rRNA RF00001 Gene; rRNA; 712 594,154 1863 5S ribosomal RNA
2 5_8S_rRNA RF00002 Gene; rRNA; 61 16,501 933 5.8S ribosomal RNA
3 6S RF00013 Gene; 150 5,117 1 6S / SsrS RNA
4 7SK RF00100 Gene; 45 49,373 10 7SK RNA
5 ACEA_U3 RF01848 Gene; snRNA; snoRNA; CD-box; 28 2,156 11 ACEA small nucleolar RNA U3
6 AdoCbl-II RF01689 Cis-reg; riboswitch; 146 174 4 AdoCbl-II (Cobalamin/B12) riboswitch aptamer
7 Archaea_SRP RF01857 Gene; 54 294 1 Archaeal signal recognition particle RNA
8 Bacteria_large_SRP RF01854 Gene; 92 1,447 5 Bacterial large signal recognition particle RNA
9 Bacteria_small_SRP RF00169 Gene; 261 6,888 21 Bacterial small signal recognition particle RNA
10 c-di-AMP RF00379 Cis-reg; riboswitch; 106 7,607 16 c-di-AMP riboswitch aptamer (ydaO/yuaA leader)
11 c-di-GMP-I RF01051 Cis-reg; riboswitch; 155 5,092 17 c-di-GMP-I riboswitch aptamer
12 c-di-GMP-I-GGC RF03167 Cis-reg; riboswitch; 40 1,298 11 c-di-GMP-I-GGC riboswitch aptamer
13 c-di-GMP-II RF01786 Cis-reg; riboswitch; 54 541 2 Cyclic di-GMP-II riboswitch aptamer
14 Cobalamin RF00174 Cis-reg; riboswitch; 434 20,864 3 Cobalamin riboswitch aptamer
15 Corona_FSE RF00507 Cis-reg; frameshift_element; 50 76 5 Coronavirus frameshifting stimulation element
16 CRISPR-DR16 RF01330 Gene; CRISPR; 6 1,291 4 CRISPR RNA direct repeat element
17 CRISPR-DR31 RF01357 Gene; CRISPR; 3 36 2 CRISPR RNA direct repeat element
18 CRISPR-DR34 RF01344 Gene; CRISPR; 5 577 12 CRISPR RNA direct repeat element
19 DENV_SLA RF02340 Cis-reg; 15 2 3 Dengue virus SLA
20 DnaX RF00382 Cis-reg; frameshift_element; 5 102 2 DnaX ribosomal frameshifting element
21 Flavivirus_DB RF00525 Cis-reg; 112 13 2 Flavivirus DB element
22 Flavivirus_SLIV RF01415 Cis-reg; 21 0 1 Flavivirus 3'UTR stem loop IV
23 Fluoride RF01734 Cis-reg; riboswitch; 289 2,388 6 Fluoride riboswitch aptamer (crcB RNA motif)
24 FMN RF00050 Cis-reg; riboswitch; 146 6,230 8 FMN riboswitch aptamer (RFN element)
25 Fungi_U3 RF01846 Gene; snRNA; snoRNA; CD-box; 66 1,319 32 Fungal small nucleolar RNA U3
26 Gammaretro_CES RF00374 Cis-reg; 25 81 2 Gammaretrovirus core encapsidation signal
27 GIR1 RF01807 Gene; ribozyme; 13 0 1 GIR1 branching ribozyme
28 glmS RF00234 Cis-reg; riboswitch; 18 1,328 39 glmS glucosamine-6-phosphate activated ribozyme aptamer
29 Glutamine RF01739 Cis-reg; riboswitch; 940 272 6 Glutamine riboswitch aptamer (glnA leader)
30 Glutamine-II RF01704 Cis-reg; riboswitch; 628 59 2 Glutamine-II riboswitch aptamer
31 Glycine RF00504 Cis-reg; riboswitch; 44 9,425 25 Glycine riboswitch aptamer
32 GP_knot1 RF01073 Cis-reg; 8 3,368 1 Gag/pol translational readthrough site
33 group-II-D1D4-1 RF01998 Intron; 237 2,508 26 Group II catalytic intron D1-D4-1
34 group-II-D1D4-3 RF02001 Intron; 406 4,274 30 Group II catalytic intron D1-D4-3
35 group-II-D1D4-7 RF02012 Intron; 244 1,296 5 Group II catalytic intron D1-D4-7
36 Guanidine-I RF00442 Cis-reg; riboswitch; 100 1,509 10 Guanidine-I riboswitch aptamer
37 Guanidine-III RF01763 Cis-reg; riboswitch; 41 1,282 13 Guanidine-III riboswitch aptamer (yKKC-III)
38 Hairpin-meta1 RF04190 Gene; ribozyme; 84 0 8 Hairpin ribozyme 1 from viruses-like metatranscriptomes
39 Hatchet RF02678 Gene; ribozyme; 155 24 3 Hatchet ribozyme
40 HBV_epsilon RF01047 Cis-reg; 33 14 1 HBV RNA encapsidation signal epsilon
41 HCV_ARF_SL RF00620 Cis-reg; 57 1 3 Hepatitis C alternative reading frame stem-loop
42 Histone3 RF00032 Cis-reg; 50 44,596 1 Histone 3' UTR stem-loop
43 HIV-1_DIS RF00175 Cis-reg; 70 29 10 Human immunodeficiency virus type 1 dimerisation initiation site
44 HIV-1_SD RF01380 Cis-reg; 22 53 3 Human immunodeficiency virus type 1 major splice donor
45 HIV-1_SL3 RF01381 Cis-reg; 19 25 1 HIV-1 stem-loop 3 Psi packaging signal
46 HIV_FE RF00480 Cis-reg; frameshift_element; 147 29 5 HIV Ribosomal frameshift signal
47 HIV_PBS RF00375 Cis-reg; 132 21 6 HIV primer binding site (PBS)
48 Intron_gpI RF00028 Intron; 12 5,602 40 Group I catalytic intron
49 Intron_gpII RF00029 Intron; 92 49,099 28 Group II catalytic intron
50 IRES_Cripavirus RF00458 Cis-reg; IRES; 7 10 13 Cripavirus internal ribosome entry site (IRES)
51 IRES_HCV RF00061 Cis-reg; IRES; 51 1 25 Hepatitis C virus internal ribosome entry site
52 IRES_HepA RF00228 Cis-reg; IRES; 23 0 2 Hepatitis A virus internal ribosome entry site (IRES)
53 IRES_Pesti RF00209 Cis-reg; IRES; 25 2 1 Pestivirus internal ribosome entry site (IRES)
54 IRES_Picorna_2 RF00210 Cis-reg; IRES; 92 12 3 Aphthovirus internal ribosome entry site (IRES)
55 IRE_I RF00037 Cis-reg; 62 6,829 2 Iron response element I
56 IRE_II RF02253 Cis-reg; 30 5,197 1 Iron response element II
57 K10_TLS RF00207 Cis-reg; 10 18 5 K10 transport/localisation element (TLS)
58 let-7 RF00027 Gene; miRNA; 64 8,694 2 let-7 microRNA precursor
59 LSU_rRNA_archaea RF02540 Gene; rRNA; 91 2,955 1622 Archaeal large subunit ribosomal RNA
60 LSU_rRNA_bacteria RF02541 Gene; rRNA; 102 51,934 2291 Bacterial large subunit ribosomal RNA
61 LSU_rRNA_eukarya RF02543 Gene; rRNA; 88 107,465 2076 Eukaryotic large subunit ribosomal RNA
62 LSU_trypano_mito RF02546 Gene; rRNA; 6 12 12 Trypanosomatid mitochondrial large subunit ribosomal RNA
63 Lysine RF00168 Cis-reg; riboswitch; 47 3,224 16 Lysine riboswitch aptamer
64 Magnesium RF00380 Cis-reg; riboswitch; 159 1,095 3 M-box riboswitch aptamer (ykoK leader)
65 Manganese RF00080 Cis-reg; riboswitch; 29 1,126 4 Manganese Mn2+ riboswitch aptamer (yybP-ykoY)
66 Metazoa_SRP RF00017 Gene; 91 383,523 19 Metazoan signal recognition particle RNA
67 mir-15 RF00455 Gene; miRNA; 164 2,045 3 mir-15 microRNA precursor family
68 mir-16 RF00254 Gene; miRNA; 14 4,705 5 mir-16 microRNA precursor family
69 mir-166 RF00075 Gene; miRNA; 31 2,599 1 mir-166 microRNA precursor
70 mir-2985 RF02095 Gene; miRNA; 8 2,000 1 mir-2985-2 microRNA precursor
71 mir-663 RF00957 Gene; miRNA; 6 102 3 mir-663 microRNA precursor family
72 mir-TAR RF00250 Gene; miRNA; 45 48 5 Trans-activation response element (TAR)
73 MS2 RF02359 Cis-reg; 5 3 1 Bacteriophage MS2 operator hairpin
74 nadA RF03013 Gene; sRNA; 186 48 16 nadA riboswitch
75 NiCo RF02683 Cis-reg; riboswitch; 83 215 1 NiCo (Nickel/Cobalt) riboswitch aptamer
76 Pab160 RF02796 Gene; snRNA; snoRNA; HACA-box; 5 2 6 Pab160 RNA
77 Phage_pRNA RF00044 Gene; 5 1 15 3WJ core of Phi29 Bacteriophage pRNA
78 Pistol RF02679 Gene; ribozyme; 47 61 8 Pistol ribozyme
79 PLRV_xrRNA RF04222 Cis-reg; 44 91 2 Flavivirus Potato leading responsible virus exoribonuclease-resistant RNA
80 preQ1-II RF01054 Cis-reg; riboswitch; 15 49 1 PreQ1-II (pre queuosine) riboswitch aptamer
81 PreQ1-III RF02680 Cis-reg; riboswitch; 31 10 3 PreQ1-III (pre queuosine) riboswitch aptamer
82 Protozoa_SRP RF01856 Gene; 18 111 17 Protozoan signal recognition particle RNA
83 PrrB_RsmZ RF00166 Gene; sRNA; 37 143 2 PrrB/RsmZ RNA family
84 Purine RF00167 Cis-reg; riboswitch; 133 4,097 58 Purine riboswitch aptamer
85 RNA-OUT RF00240 Gene; antisense; 16 102 1 RNA-OUT
86 RNaseP_arch RF00373 Gene; ribozyme; 70 295 4 Archaeal RNase P
87 RNaseP_bact_a RF00010 Gene; ribozyme; 458 8,471 8 Bacterial RNase P class A
88 RNaseP_bact_b RF00011 Gene; ribozyme; 114 955 4 Bacterial RNase P class B
89 RNaseP_nuc RF00009 Gene; ribozyme; 116 3,848 4 Nuclear RNase P
90 RNase_MRP RF00030 Gene; ribozyme; 66 3,510 5 RNase MRP
91 RydC RF00505 Gene; sRNA; 6 23 1 RydC RNA
92 S15 RF00114 Cis-reg; leader; 78 727 2 Ribosomal S15 leader
93 s2m RF00164 Cis-reg; 39 22 1 Coronavirus 3' stem-loop II-like motif (s2m)
94 SAM RF00162 Cis-reg; riboswitch; 457 9,625 29 SAM riboswitch aptamer (S box leader)
95 SAM-I-IV RF01725 Cis-reg; riboswitch; 417 567 2 SAM-I/IV (S-adenosyl methionine) riboswitch aptamer
96 SAM-IV RF00634 Cis-reg; riboswitch; 40 2,360 4 SAM (S-adenosyl methionine) riboswitch aptamer
97 SAM-SAH RF01727 Cis-reg; riboswitch; 54 364 1 SAM/SAH riboswitch aptamer
98 SAM_V RF01826 Cis-reg; riboswitch; 7 23 1 SAM-V (S-adenosyl methionine) riboswitch aptamer
99 SECIS_1 RF00031 Cis-reg; 61 3,793 2 Selenocysteine insertion sequence 1
100 SSU_rRNA_archaea RF01959 Gene; rRNA; 86 709 1562 Archaeal small subunit ribosomal RNA
101 SSU_rRNA_bacteria RF00177 Gene; rRNA; 99 42,628 1598 Bacterial small subunit ribosomal RNA
102 SSU_rRNA_eukarya RF01960 Gene; rRNA; 90 75,755 1553 Eukaryotic small subunit ribosomal RNA
103 SSU_rRNA_microsporidia RF02542 Gene; rRNA; 46 1,035 1968 Microsporidia small subunit ribosomal RNA
104 SSU_trypano_mito RF02545 Gene; rRNA; 4 11 16 Trypanosomatid mitochondrial small subunit ribosomal RNA
105 TCV_H5 RF00500 Cis-reg; 5 1 1 Turnip crinkle virus (TCV) repressor of minus strand synthesis H5
106 Telomerase-cil RF00025 Gene; 21 4 5 Ciliate telomerase RNA
107 Telomerase-vert RF00024 Gene; 37 523 13 Vertebrate telomerase RNA
108 THF RF01831 Cis-reg; riboswitch; 101 747 12 THF (Tetrahydrofolate) riboswitch aptamer
109 TLS-PK3 RF01084 Cis-reg; 9 14 3 Pseudoknot of tRNA-like structure
110 tmRNA RF00023 Gene; 477 8,092 24 transfer-messenger RNA
111 ToxI RF02519 Gene; antitoxin; 5 1 1 ToxI antitoxin
112 TPP RF00059 Cis-reg; riboswitch; 115 16,130 34 TPP riboswitch aptamer (THI element)
113 tRNA RF00005 Gene; tRNA; 954 5,335,975 2215 tRNA
114 tRNA-Sec RF01852 Gene; tRNA; 109 4,211 27 Selenocysteine transfer RNA
115 Twister-sister RF02681 Gene; ribozyme; 113 17 5 Twister_sister_ribozyme
116 Tymo_tRNA-like RF00233 Cis-reg; 29 38 3 Tymovirus/Pomovirus/Furovirus tRNA-like 3' UTR element
117 U1 RF00003 Gene; snRNA; splicing; 100 41,297 8 U1 spliceosomal RNA
118 U12 RF00007 Gene; snRNA; splicing; 62 2,106 2 U12 minor spliceosomal RNA
119 U1_yeast RF00488 Gene; snRNA; splicing; 5 27 7 Yeast U1 spliceosomal RNA
120 U2 RF00004 Gene; snRNA; splicing; 208 71,512 86 U2 spliceosomal RNA
121 U3 RF00012 Gene; snRNA; snoRNA; CD-box; 87 19,072 13 Small nucleolar RNA U3
122 U4 RF00015 Gene; snRNA; splicing; 177 32,178 13 U4 spliceosomal RNA
123 U5 RF00020 Gene; snRNA; splicing; 180 28,527 94 U5 spliceosomal RNA
124 U6 RF00026 Gene; snRNA; splicing; 188 204,442 94 U6 spliceosomal RNA
125 U6atac RF00619 Gene; snRNA; splicing; 62 9,067 1 U6atac minor spliceosomal RNA
126 U7 RF00066 Gene; snRNA; 49 10,439 1 U7 small nuclear RNA
127 UPSK RF00390 Cis-reg; 6 1 2 UPSK RNA
128 VA RF00102 Gene; 55 40 1 VA RNA
129 Xanthine RF03054 Cis-reg; riboswitch; 383 275 8 Xanthine riboswitch aptamer (NMT1 RNA)
130 ZMP-ZTP RF01750 Cis-reg; riboswitch; 185 3,295 12 ZMP/ZTP riboswitch aptamer (pfl RNA motif)
0 - 9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z
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